noone@mail.com Analysis of Dieting study 16S data % Fri Sep 7 05:46:18 2018

(1.4.1.3.2.1.20) Plots of Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'.

Plots are shown with relation to various combinations of meta data variables and in different graphical representations. Lots of plots here.

(1.4.1.3.2.1.20.2) Iterating over all combinations of grouping variables
(1.4.1.3.2.1.20.2.1) Entire pool of samples
(1.4.1.3.2.1.20.2.2) Iterating over Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. profile sorting order
(1.4.1.3.2.1.20.2.2.1) Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. profile sorting order: GeneSelector paired test ranking
(1.4.1.3.2.1.20.2.2.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.4.1.3.2.1.20.2.2.2.1) faceted plots. Iterating over orientation and, optionally, scaling
(1.4.1.3.2.1.20.2.2.2.1.1) Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.4.1.3.2.1.20.2.2.2.1.1.0) Table 236. Data table used for plots. Data for all pooled samples. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.4.1.3.2.1.20.2.2.2.1.1.0-323382f6b95.1.4.1.3.2.1.20.2.2.csv

.record.id feature abundance.diff
SB11 N_0 -2.325e-01
SB16 N_0 7.322e+00
SB18 N_0 -1.031e+01
SB28 N_0 -3.630e+00
SB29 N_0 1.842e+01
SB34 N_0 3.247e+00
SB36 N_0 -6.100e+00
SB39 N_0 1.358e+01
SB4 N_0 1.195e+01
SB41 N_0 -5.275e+00
SB43 N_0 -1.152e+00
SB44 N_0 -5.082e+00
SB5 N_0 1.679e+01
SB9 N_0 1.321e+01
SB11 N_0.25 -1.283e+00
SB16 N_0.25 4.700e+00
SB18 N_0.25 -1.092e+01
SB28 N_0.25 -3.741e+00
SB29 N_0.25 8.510e+00
SB34 N_0.25 2.554e+00
SB36 N_0.25 -3.225e+00
SB39 N_0.25 1.081e+01
SB4 N_0.25 6.573e+00
SB41 N_0.25 -2.409e+00
SB43 N_0.25 -2.093e+00
SB44 N_0.25 -5.697e+00
SB5 N_0.25 1.468e+01
SB9 N_0.25 1.185e+01
SB11 N_0.5 -2.179e+00
SB16 N_0.5 1.932e+00
SB18 N_0.5 -9.405e+00
SB28 N_0.5 -2.058e+00
SB29 N_0.5 2.977e+00
SB34 N_0.5 1.568e+00
SB36 N_0.5 -1.218e+00
SB39 N_0.5 7.921e+00
SB4 N_0.5 2.604e+00
SB41 N_0.5 -8.997e-01
SB43 N_0.5 -2.896e+00
SB44 N_0.5 -5.939e+00
SB5 N_0.5 1.302e+01
SB9 N_0.5 9.958e+00
SB11 N_1 -2.381e+00
SB16 N_1 -2.646e-01
SB18 N_1 -5.951e+00
SB28 N_1 4.491e-01
SB29 N_1 6.239e-02
SB34 N_1 3.987e-01
SB36 N_1 8.197e-03
SB39 N_1 3.729e+00
SB4 N_1 4.432e-01
SB41 N_1 -1.376e-01
SB43 N_1 -3.469e+00
SB44 N_1 -4.926e+00
SB5 N_1 1.024e+01
SB9 N_1 6.375e+00
SB11 N_2 -1.020e+00
SB16 N_2 -4.206e-01
SB18 N_2 -3.564e+00
SB28 N_2 1.100e+00
SB29 N_2 -3.921e-01
SB34 N_2 8.743e-02
SB36 N_2 -1.195e-01
SB39 N_2 1.474e+00
SB4 N_2 1.226e-01
SB41 N_2 -2.933e-02
SB43 N_2 -3.274e+00
SB44 N_2 -3.375e+00
SB5 N_2 7.239e+00
SB9 N_2 3.117e+00
SB11 N_4 -3.036e-01
SB16 N_4 -2.969e-01
SB18 N_4 -2.508e+00
SB28 N_4 8.501e-01
SB29 N_4 -3.562e-01
SB34 N_4 4.989e-02
SB36 N_4 -3.522e-01
SB39 N_4 8.885e-01
SB4 N_4 7.959e-02
SB41 N_4 -1.732e-02
SB43 N_4 -2.783e+00
SB44 N_4 -2.480e+00
SB5 N_4 5.261e+00
SB9 N_4 1.790e+00
SB11 N_8 -1.581e-01
SB16 N_8 -2.425e-01
SB18 N_8 -2.026e+00
SB28 N_8 6.772e-01
SB29 N_8 -3.014e-01
SB34 N_8 4.082e-02
SB36 N_8 -3.932e-01
SB39 N_8 6.977e-01
SB4 N_8 6.763e-02
SB41 N_8 -1.443e-02
SB43 N_8 -2.271e+00
SB44 N_8 -2.017e+00
SB5 N_8 4.125e+00
SB9 N_8 1.360e+00
SB11 N_Inf -1.186e-01
SB16 N_Inf -2.037e-01
SB18 N_Inf -1.622e+00
SB28 N_Inf 5.502e-01
SB29 N_Inf -2.547e-01
SB34 N_Inf 3.449e-02
SB36 N_Inf -3.311e-01
SB39 N_Inf 5.662e-01
SB4 N_Inf 5.879e-02
SB41 N_Inf -1.236e-02
SB43 N_Inf -1.711e+00
SB44 N_Inf -1.610e+00
SB5 N_Inf 3.122e+00
SB9 N_Inf 1.075e+00
SB11 NE_0.25 -2.623e-02
SB16 NE_0.25 2.894e-02
SB18 NE_0.25 -1.847e-01
SB28 NE_0.25 -7.312e-02
SB29 NE_0.25 -1.095e-03
SB34 NE_0.25 2.566e-02
SB36 NE_0.25 8.408e-03
SB39 NE_0.25 6.593e-02
SB4 NE_0.25 8.704e-02
SB41 NE_0.25 2.416e-03
SB43 NE_0.25 -3.992e-02
SB44 NE_0.25 -9.173e-02
SB5 NE_0.25 1.083e-01
SB9 NE_0.25 9.694e-02
SB11 NE_0.5 -4.807e-02
SB16 NE_0.5 8.597e-05
SB18 NE_0.5 -2.150e-01
SB28 NE_0.5 -3.429e-02
SB29 NE_0.5 -9.274e-02
SB34 NE_0.5 2.116e-02
SB36 NE_0.5 3.591e-02
SB39 NE_0.5 7.755e-02
SB4 NE_0.5 3.061e-02
SB41 NE_0.5 7.216e-03
SB43 NE_0.5 -7.066e-02
SB44 NE_0.5 -1.396e-01
SB5 NE_0.5 1.600e-01
SB9 NE_0.5 1.277e-01
SB11 NE_1 -5.383e-02
SB16 NE_1 -3.290e-02
SB18 NE_1 -1.496e-01
SB28 NE_1 4.952e-02
SB29 NE_1 -1.528e-01
SB34 NE_1 2.315e-03
SB36 NE_1 4.723e-02
SB39 NE_1 4.343e-02
SB4 NE_1 -2.266e-02
SB41 NE_1 9.288e-03
SB43 NE_1 -9.334e-02
SB44 NE_1 -1.349e-01
SB5 NE_1 1.665e-01
SB9 NE_1 1.041e-01
SB11 NE_2 -2.311e-02
SB16 NE_2 -2.831e-02
SB18 NE_2 -8.693e-02
SB28 NE_2 6.745e-02
SB29 NE_2 -1.524e-01
SB34 NE_2 -2.898e-03
SB36 NE_2 2.524e-02
SB39 NE_2 1.225e-02
SB4 NE_2 -3.175e-02
SB41 NE_2 8.357e-03
SB43 NE_2 -9.027e-02
SB44 NE_2 -9.376e-02
SB5 NE_2 1.256e-01
SB9 NE_2 4.950e-02
SB11 NE_4 -6.757e-03
SB16 NE_4 -2.208e-02
SB18 NE_4 -5.740e-02
SB28 NE_4 5.263e-02
SB29 NE_4 -1.390e-01
SB34 NE_4 -3.263e-03
SB36 NE_4 9.770e-03
SB39 NE_4 3.036e-03
SB4 NE_4 -3.302e-02
SB41 NE_4 7.940e-03
SB43 NE_4 -7.709e-02
SB44 NE_4 -6.761e-02
SB5 NE_4 8.955e-02
SB9 NE_4 2.301e-02
SB11 NE_8 -3.437e-03
SB16 NE_8 -1.961e-02
SB18 NE_8 -4.369e-02
SB28 NE_8 4.353e-02
SB29 NE_8 -1.300e-01
SB34 NE_8 -3.326e-03
SB36 NE_8 5.863e-03
SB39 NE_8 -1.869e-04
SB4 NE_8 -3.338e-02
SB41 NE_8 7.804e-03
SB43 NE_8 -6.281e-02
SB44 NE_8 -5.388e-02
SB5 NE_8 6.746e-02
SB9 NE_8 1.414e-02
SB11 NE_Inf -2.554e-03
SB16 NE_Inf -1.784e-02
SB18 NE_Inf -3.214e-02
SB28 NE_Inf 3.687e-02

(1.4.1.3.2.1.20.2.2.2.1.1.1) Widget 250. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data for all pooled samples. Click to see HTML widget file in full window: ./1.4.1.3.2.1.20.2.2.2.1.1.1-32375b2b591Dynamic.Pivot.Table.html

(1.4.1.3.2.1.20.2.2.2.1.1.1) Widget 251. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data for all pooled samples. Click to see HTML widget file in full window: ./1.4.1.3.2.1.20.2.2.2.1.1.1-3233db05b72Dynamic.Pivot.Table.html

(1.4.1.3.2.1.20.2.2.2.1.1.1) Table 237. Summary table. Data for all pooled samples. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.4.1.3.2.1.20.2.2.2.1.1.1-323394aabec.1.4.1.3.2.1.20.2.2.csv

feature mean sd median incidence
N_0 3.7676786 9.60909 1.507500 0.5000
N_0.25 2.1650794 7.54207 0.635103 0.5000
N_0.5 1.0992313 6.07559 0.334129 0.5000
NE_8 -0.0151051 0.04861 -0.003381 0.3571
NE_Inf -0.0140155 0.04165 -0.002959 0.3571
N_1 0.3268684 4.26007 0.035294 0.5714
NE_4 -0.0157340 0.05737 -0.005010 0.4286
N_4 -0.0126663 2.01949 -0.157099 0.4286
NE_2 -0.0157882 0.07350 -0.013003 0.4286
N_8 -0.0324782 1.60443 -0.086254 0.4286
N_2 0.0675569 2.79641 -0.074434 0.4286
N_Inf -0.0326253 1.23725 -0.065490 0.4286
NE_0.5 -0.0100084 0.10078 0.003651 0.5714
NE_0.25 0.0004895 0.08075 0.005412 0.5714
NE_1 -0.0155392 0.09567 -0.010171 0.5000

(1.4.1.3.2.1.20.2.2.2.1.1.1) Figure 728. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. bar_stacked plot. Image file: plots/3233b05f1bc.svg.

(1.4.1.3.2.1.20.2.2.2.1.1.1) Figure 729. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. bar (sample mean) plot. Image file: plots/3234283e39e.svg.

(1.4.1.3.2.1.20.2.2.2.1.1.1) Figure 730. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/323795328aa.svg.

(1.4.1.3.2.1.20.2.2.2.1.1.1) Figure 731. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/3239553d69.svg.

(1.4.1.3.2.1.20.2.2.2.1.2) Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.4.1.3.2.1.20.2.2.2.1.2.1) Figure 732. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. bar (sample mean) plot. Image file: plots/32373523fe4.svg.

(1.4.1.3.2.1.20.2.2.2.1.2.1) Figure 733. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/32348c3a4df.svg.

(1.4.1.3.2.1.20.2.2.2.1.2.1) Figure 734. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/3237549901f.svg.

(1.4.1.3.2.1.20.2.3) Grouping variables Drug.Before.Diet
(1.4.1.3.2.1.20.2.4) Iterating over Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. profile sorting order
(1.4.1.3.2.1.20.2.4.1) Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. profile sorting order: GeneSelector paired test ranking
(1.4.1.3.2.1.20.2.4.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.4.1.3.2.1.20.2.4.2.1) faceted plots. Iterating over orientation and, optionally, scaling
(1.4.1.3.2.1.20.2.4.2.1.1) Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.4.1.3.2.1.20.2.4.2.1.1.0) Table 238. Data table used for plots. Data grouped by Drug.Before.Diet. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.4.1.3.2.1.20.2.4.2.1.1.0-323397980a0.1.4.1.3.2.1.20.2.4.csv

.record.id Drug.Before.Diet feature abundance.diff
SB11 DrugBefore_NO N_0 -2.325e-01
SB16 DrugBefore_YES N_0 7.322e+00
SB18 DrugBefore_NO N_0 -1.031e+01
SB28 DrugBefore_YES N_0 -3.630e+00
SB29 DrugBefore_YES N_0 1.842e+01
SB34 DrugBefore_YES N_0 3.247e+00
SB36 DrugBefore_YES N_0 -6.100e+00
SB39 DrugBefore_YES N_0 1.358e+01
SB4 DrugBefore_YES N_0 1.195e+01
SB41 DrugBefore_YES N_0 -5.275e+00
SB43 DrugBefore_YES N_0 -1.152e+00
SB44 DrugBefore_YES N_0 -5.082e+00
SB5 DrugBefore_NO N_0 1.679e+01
SB9 DrugBefore_NO N_0 1.321e+01
SB11 DrugBefore_NO N_0.25 -1.283e+00
SB16 DrugBefore_YES N_0.25 4.700e+00
SB18 DrugBefore_NO N_0.25 -1.092e+01
SB28 DrugBefore_YES N_0.25 -3.741e+00
SB29 DrugBefore_YES N_0.25 8.510e+00
SB34 DrugBefore_YES N_0.25 2.554e+00
SB36 DrugBefore_YES N_0.25 -3.225e+00
SB39 DrugBefore_YES N_0.25 1.081e+01
SB4 DrugBefore_YES N_0.25 6.573e+00
SB41 DrugBefore_YES N_0.25 -2.409e+00
SB43 DrugBefore_YES N_0.25 -2.093e+00
SB44 DrugBefore_YES N_0.25 -5.697e+00
SB5 DrugBefore_NO N_0.25 1.468e+01
SB9 DrugBefore_NO N_0.25 1.185e+01
SB11 DrugBefore_NO N_0.5 -2.179e+00
SB16 DrugBefore_YES N_0.5 1.932e+00
SB18 DrugBefore_NO N_0.5 -9.405e+00
SB28 DrugBefore_YES N_0.5 -2.058e+00
SB29 DrugBefore_YES N_0.5 2.977e+00
SB34 DrugBefore_YES N_0.5 1.568e+00
SB36 DrugBefore_YES N_0.5 -1.218e+00
SB39 DrugBefore_YES N_0.5 7.921e+00
SB4 DrugBefore_YES N_0.5 2.604e+00
SB41 DrugBefore_YES N_0.5 -8.997e-01
SB43 DrugBefore_YES N_0.5 -2.896e+00
SB44 DrugBefore_YES N_0.5 -5.939e+00
SB5 DrugBefore_NO N_0.5 1.302e+01
SB9 DrugBefore_NO N_0.5 9.958e+00
SB11 DrugBefore_NO N_1 -2.381e+00
SB16 DrugBefore_YES N_1 -2.646e-01
SB18 DrugBefore_NO N_1 -5.951e+00
SB28 DrugBefore_YES N_1 4.491e-01
SB29 DrugBefore_YES N_1 6.239e-02
SB34 DrugBefore_YES N_1 3.987e-01
SB36 DrugBefore_YES N_1 8.197e-03
SB39 DrugBefore_YES N_1 3.729e+00
SB4 DrugBefore_YES N_1 4.432e-01
SB41 DrugBefore_YES N_1 -1.376e-01
SB43 DrugBefore_YES N_1 -3.469e+00
SB44 DrugBefore_YES N_1 -4.926e+00
SB5 DrugBefore_NO N_1 1.024e+01
SB9 DrugBefore_NO N_1 6.375e+00
SB11 DrugBefore_NO N_2 -1.020e+00
SB16 DrugBefore_YES N_2 -4.206e-01
SB18 DrugBefore_NO N_2 -3.564e+00
SB28 DrugBefore_YES N_2 1.100e+00
SB29 DrugBefore_YES N_2 -3.921e-01
SB34 DrugBefore_YES N_2 8.743e-02
SB36 DrugBefore_YES N_2 -1.195e-01
SB39 DrugBefore_YES N_2 1.474e+00
SB4 DrugBefore_YES N_2 1.226e-01
SB41 DrugBefore_YES N_2 -2.933e-02
SB43 DrugBefore_YES N_2 -3.274e+00
SB44 DrugBefore_YES N_2 -3.375e+00
SB5 DrugBefore_NO N_2 7.239e+00
SB9 DrugBefore_NO N_2 3.117e+00
SB11 DrugBefore_NO N_4 -3.036e-01
SB16 DrugBefore_YES N_4 -2.969e-01
SB18 DrugBefore_NO N_4 -2.508e+00
SB28 DrugBefore_YES N_4 8.501e-01
SB29 DrugBefore_YES N_4 -3.562e-01
SB34 DrugBefore_YES N_4 4.989e-02
SB36 DrugBefore_YES N_4 -3.522e-01
SB39 DrugBefore_YES N_4 8.885e-01
SB4 DrugBefore_YES N_4 7.959e-02
SB41 DrugBefore_YES N_4 -1.732e-02
SB43 DrugBefore_YES N_4 -2.783e+00
SB44 DrugBefore_YES N_4 -2.480e+00
SB5 DrugBefore_NO N_4 5.261e+00
SB9 DrugBefore_NO N_4 1.790e+00
SB11 DrugBefore_NO N_8 -1.581e-01
SB16 DrugBefore_YES N_8 -2.425e-01
SB18 DrugBefore_NO N_8 -2.026e+00
SB28 DrugBefore_YES N_8 6.772e-01
SB29 DrugBefore_YES N_8 -3.014e-01
SB34 DrugBefore_YES N_8 4.082e-02
SB36 DrugBefore_YES N_8 -3.932e-01
SB39 DrugBefore_YES N_8 6.977e-01
SB4 DrugBefore_YES N_8 6.763e-02
SB41 DrugBefore_YES N_8 -1.443e-02
SB43 DrugBefore_YES N_8 -2.271e+00
SB44 DrugBefore_YES N_8 -2.017e+00
SB5 DrugBefore_NO N_8 4.125e+00
SB9 DrugBefore_NO N_8 1.360e+00
SB11 DrugBefore_NO N_Inf -1.186e-01
SB16 DrugBefore_YES N_Inf -2.037e-01
SB18 DrugBefore_NO N_Inf -1.622e+00
SB28 DrugBefore_YES N_Inf 5.502e-01
SB29 DrugBefore_YES N_Inf -2.547e-01
SB34 DrugBefore_YES N_Inf 3.449e-02
SB36 DrugBefore_YES N_Inf -3.311e-01
SB39 DrugBefore_YES N_Inf 5.662e-01
SB4 DrugBefore_YES N_Inf 5.879e-02
SB41 DrugBefore_YES N_Inf -1.236e-02
SB43 DrugBefore_YES N_Inf -1.711e+00
SB44 DrugBefore_YES N_Inf -1.610e+00
SB5 DrugBefore_NO N_Inf 3.122e+00
SB9 DrugBefore_NO N_Inf 1.075e+00
SB11 DrugBefore_NO NE_0.25 -2.623e-02
SB16 DrugBefore_YES NE_0.25 2.894e-02
SB18 DrugBefore_NO NE_0.25 -1.847e-01
SB28 DrugBefore_YES NE_0.25 -7.312e-02
SB29 DrugBefore_YES NE_0.25 -1.095e-03
SB34 DrugBefore_YES NE_0.25 2.566e-02
SB36 DrugBefore_YES NE_0.25 8.408e-03
SB39 DrugBefore_YES NE_0.25 6.593e-02
SB4 DrugBefore_YES NE_0.25 8.704e-02
SB41 DrugBefore_YES NE_0.25 2.416e-03
SB43 DrugBefore_YES NE_0.25 -3.992e-02
SB44 DrugBefore_YES NE_0.25 -9.173e-02
SB5 DrugBefore_NO NE_0.25 1.083e-01
SB9 DrugBefore_NO NE_0.25 9.694e-02
SB11 DrugBefore_NO NE_0.5 -4.807e-02
SB16 DrugBefore_YES NE_0.5 8.597e-05
SB18 DrugBefore_NO NE_0.5 -2.150e-01
SB28 DrugBefore_YES NE_0.5 -3.429e-02
SB29 DrugBefore_YES NE_0.5 -9.274e-02
SB34 DrugBefore_YES NE_0.5 2.116e-02
SB36 DrugBefore_YES NE_0.5 3.591e-02
SB39 DrugBefore_YES NE_0.5 7.755e-02
SB4 DrugBefore_YES NE_0.5 3.061e-02
SB41 DrugBefore_YES NE_0.5 7.216e-03
SB43 DrugBefore_YES NE_0.5 -7.066e-02
SB44 DrugBefore_YES NE_0.5 -1.396e-01
SB5 DrugBefore_NO NE_0.5 1.600e-01
SB9 DrugBefore_NO NE_0.5 1.277e-01
SB11 DrugBefore_NO NE_1 -5.383e-02
SB16 DrugBefore_YES NE_1 -3.290e-02
SB18 DrugBefore_NO NE_1 -1.496e-01
SB28 DrugBefore_YES NE_1 4.952e-02
SB29 DrugBefore_YES NE_1 -1.528e-01
SB34 DrugBefore_YES NE_1 2.315e-03
SB36 DrugBefore_YES NE_1 4.723e-02
SB39 DrugBefore_YES NE_1 4.343e-02
SB4 DrugBefore_YES NE_1 -2.266e-02
SB41 DrugBefore_YES NE_1 9.288e-03
SB43 DrugBefore_YES NE_1 -9.334e-02
SB44 DrugBefore_YES NE_1 -1.349e-01
SB5 DrugBefore_NO NE_1 1.665e-01
SB9 DrugBefore_NO NE_1 1.041e-01
SB11 DrugBefore_NO NE_2 -2.311e-02
SB16 DrugBefore_YES NE_2 -2.831e-02
SB18 DrugBefore_NO NE_2 -8.693e-02
SB28 DrugBefore_YES NE_2 6.745e-02
SB29 DrugBefore_YES NE_2 -1.524e-01
SB34 DrugBefore_YES NE_2 -2.898e-03
SB36 DrugBefore_YES NE_2 2.524e-02
SB39 DrugBefore_YES NE_2 1.225e-02
SB4 DrugBefore_YES NE_2 -3.175e-02
SB41 DrugBefore_YES NE_2 8.357e-03
SB43 DrugBefore_YES NE_2 -9.027e-02
SB44 DrugBefore_YES NE_2 -9.376e-02
SB5 DrugBefore_NO NE_2 1.256e-01
SB9 DrugBefore_NO NE_2 4.950e-02
SB11 DrugBefore_NO NE_4 -6.757e-03
SB16 DrugBefore_YES NE_4 -2.208e-02
SB18 DrugBefore_NO NE_4 -5.740e-02
SB28 DrugBefore_YES NE_4 5.263e-02
SB29 DrugBefore_YES NE_4 -1.390e-01
SB34 DrugBefore_YES NE_4 -3.263e-03
SB36 DrugBefore_YES NE_4 9.770e-03
SB39 DrugBefore_YES NE_4 3.036e-03
SB4 DrugBefore_YES NE_4 -3.302e-02
SB41 DrugBefore_YES NE_4 7.940e-03
SB43 DrugBefore_YES NE_4 -7.709e-02
SB44 DrugBefore_YES NE_4 -6.761e-02
SB5 DrugBefore_NO NE_4 8.955e-02
SB9 DrugBefore_NO NE_4 2.301e-02
SB11 DrugBefore_NO NE_8 -3.437e-03
SB16 DrugBefore_YES NE_8 -1.961e-02
SB18 DrugBefore_NO NE_8 -4.369e-02
SB28 DrugBefore_YES NE_8 4.353e-02
SB29 DrugBefore_YES NE_8 -1.300e-01
SB34 DrugBefore_YES NE_8 -3.326e-03
SB36 DrugBefore_YES NE_8 5.863e-03
SB39 DrugBefore_YES NE_8 -1.869e-04
SB4 DrugBefore_YES NE_8 -3.338e-02
SB41 DrugBefore_YES NE_8 7.804e-03
SB43 DrugBefore_YES NE_8 -6.281e-02
SB44 DrugBefore_YES NE_8 -5.388e-02
SB5 DrugBefore_NO NE_8 6.746e-02
SB9 DrugBefore_NO NE_8 1.414e-02
SB11 DrugBefore_NO NE_Inf -2.554e-03
SB16 DrugBefore_YES NE_Inf -1.784e-02
SB18 DrugBefore_NO NE_Inf -3.214e-02
SB28 DrugBefore_YES NE_Inf 3.687e-02

(1.4.1.3.2.1.20.2.4.2.1.1.1) Widget 252. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data grouped by Drug.Before.Diet. Click to see HTML widget file in full window: ./1.4.1.3.2.1.20.2.4.2.1.1.1-323383efb79Dynamic.Pivot.Table.html

(1.4.1.3.2.1.20.2.4.2.1.1.1) Widget 253. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data grouped by Drug.Before.Diet. Click to see HTML widget file in full window: ./1.4.1.3.2.1.20.2.4.2.1.1.1-3232bc613Dynamic.Pivot.Table.html

(1.4.1.3.2.1.20.2.4.2.1.1.1) Table 239. Summary table. Data grouped by Drug.Before.Diet. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.4.1.3.2.1.20.2.4.2.1.1.1-3233702d8b4.1.4.1.3.2.1.20.2.4.csv

feature Drug.Before.Diet mean sd median incidence
N_0 DrugBefore_NO 4.864375 12.49170 6.487500 0.5
N_0 DrugBefore_YES 3.329000 8.97828 1.047500 0.5
N_0.25 DrugBefore_NO 3.582188 11.91140 5.283115 0.5
N_0.25 DrugBefore_YES 1.598236 5.79834 0.230424 0.5
N_0.5 DrugBefore_NO 2.849406 10.48068 3.889194 0.5
N_0.5 DrugBefore_YES 0.399161 3.84678 0.334129 0.5
NE_8 DrugBefore_NO 0.008620 0.04610 0.005353 0.5
NE_8 DrugBefore_YES -0.024595 0.04852 -0.011466 0.3
NE_Inf DrugBefore_NO 0.005344 0.03304 0.002891 0.5
NE_Inf DrugBefore_YES -0.021759 0.04368 -0.010602 0.3
N_1 DrugBefore_NO 2.070524 7.51495 1.997180 0.5
N_1 DrugBefore_YES -0.370594 2.34468 0.035294 0.6
NE_4 DrugBefore_NO 0.012102 0.06138 0.008128 0.5
NE_4 DrugBefore_YES -0.026869 0.05492 -0.012670 0.4
N_4 DrugBefore_NO 1.060065 3.30501 0.743414 0.5
N_4 DrugBefore_YES -0.441759 1.23851 -0.157099 0.4
NE_2 DrugBefore_NO 0.016271 0.09177 0.013196 0.5
NE_2 DrugBefore_YES -0.028612 0.06600 -0.015603 0.4
N_8 DrugBefore_NO 0.825306 2.59960 0.601013 0.5
N_8 DrugBefore_YES -0.375592 1.00389 -0.128455 0.4
N_2 DrugBefore_NO 1.442935 4.74462 1.048441 0.5
N_2 DrugBefore_YES -0.482594 1.61696 -0.074434 0.4
N_Inf DrugBefore_NO 0.614140 2.00352 0.478377 0.5
N_Inf DrugBefore_YES -0.291332 0.78284 -0.108014 0.4
NE_0.5 DrugBefore_NO 0.006162 0.17349 0.039826 0.5
NE_0.5 DrugBefore_YES -0.016476 0.06690 0.003651 0.6
NE_0.25 DrugBefore_NO -0.001419 0.13652 0.035357 0.5
NE_0.25 DrugBefore_YES 0.001253 0.05660 0.005412 0.6
NE_1 DrugBefore_NO 0.016806 0.14461 0.025155 0.5
NE_1 DrugBefore_YES -0.028477 0.07483 -0.010171 0.5

(1.4.1.3.2.1.20.2.4.2.1.1.1) Figure 735. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar_stacked plot. Image file: plots/323585c358e.svg.

(1.4.1.3.2.1.20.2.4.2.1.1.1) Figure 736. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar (sample mean) plot. Image file: plots/3237e345be7.svg.

(1.4.1.3.2.1.20.2.4.2.1.1.1) Figure 737. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3237613647a.svg.

(1.4.1.3.2.1.20.2.4.2.1.1.1) Figure 738. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/323688e7d99.svg.

(1.4.1.3.2.1.20.2.4.2.1.2) Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.4.1.3.2.1.20.2.4.2.1.2.1) Figure 739. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar (sample mean) plot. Image file: plots/32312214247.svg.

(1.4.1.3.2.1.20.2.4.2.1.2.1) Figure 740. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3232258ee37.svg.

(1.4.1.3.2.1.20.2.4.2.1.2.1) Figure 741. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/32322519d40.svg.

(1.4.1.3.2.1.20.2.4.2.2) dodged plots. Iterating over orientation and, optionally, scaling
(1.4.1.3.2.1.20.2.4.2.2.1) Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.4.1.3.2.1.20.2.4.2.2.1.1) Figure 742. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar (sample mean) plot. Image file: plots/32320642da3.svg.

(1.4.1.3.2.1.20.2.4.2.2.1.1) Figure 743. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3231eeecd5b.svg.

(1.4.1.3.2.1.20.2.4.2.2.1.1) Figure 744. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/3231b88f1c4.svg.

(1.4.1.3.2.1.20.2.4.2.2.2) Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.4.1.3.2.1.20.2.4.2.2.2.1) Figure 745. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar (sample mean) plot. Image file: plots/3231c6c274.svg.

(1.4.1.3.2.1.20.2.4.2.2.2.1) Figure 746. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/323342528f9.svg.

(1.4.1.3.2.1.20.2.4.2.2.2.1) Figure 747. Abundance difference between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/3234cf2ff40.svg.

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